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      The complete mitochondrial genome of the emperor dragonfly Anax imperator LEACH, 1815 (Odonata : Aeshnidae) via NGS sequencing

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          Abstract

          Here we report the complete mitochondrial genome of the emperor dragonfly, Anax imperator (Odonata: Aeshnidae) as the first of its genus. Data were generated via next generation sequencing (NGS) and assembled using an iterative approach. The typical metazoan set of 37 genes (13 protein-coding genes, 22 tRNA genes, and 2 rRNA genes) was detected in the same gene order as in other odonate mitogenomes. However, only three intergenic spacer regions are present in A. imperator lacking the distinct s5 spacer, which was regarded as informative feature of the odonate suborder Anisoptera (dragonflies) but absent in Zygoptera (damselflies). With 16,087 bp, it is the longest anisopteran mitogenome to date, mainly due to the long A + T-rich control region of 1291 bp.

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          Basic local alignment search tool.

          Stephen F Altschul, Warren Gish, Webb Miller … (1990)
          A new approach to rapid sequence comparison, basic local alignment search tool (BLAST), directly approximates alignments that optimize a measure of local similarity, the maximal segment pair (MSP) score. Recent mathematical results on the stochastic properties of MSP scores allow an analysis of the performance of this method as well as the statistical significance of alignments it generates. The basic algorithm is simple and robust; it can be implemented in a number of ways and applied in a variety of contexts including straightforward DNA and protein sequence database searches, motif searches, gene identification searches, and in the analysis of multiple regions of similarity in long DNA sequences. In addition to its flexibility and tractability to mathematical analysis, BLAST is an order of magnitude faster than existing sequence comparison tools of comparable sensitivity.
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            tRNAscan-SE: a program for improved detection of transfer RNA genes in genomic sequence.

            Todd Lowe, Sean R. Eddy (1997)
            We describe a program, tRNAscan-SE, which identifies 99-100% of transfer RNA genes in DNA sequence while giving less than one false positive per 15 gigabases. Two previously described tRNA detection programs are used as fast, first-pass prefilters to identify candidate tRNAs, which are then analyzed by a highly selective tRNA covariance model. This work represents a practical application of RNA covariance models, which are general, probabilistic secondary structure profiles based on stochastic context-free grammars. tRNAscan-SE searches at approximately 30 000 bp/s. Additional extensions to tRNAscan-SE detect unusual tRNA homologues such as selenocysteine tRNAs, tRNA-derived repetitive elements and tRNA pseudogenes.
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              ARWEN: a program to detect tRNA genes in metazoan mitochondrial nucleotide sequences.

              Dean Laslett, Björn Canbäck (2008)
              Mitochondrial genomes encode their own transfer RNAs (tRNAs). These are often degenerate in sequence and structure compared to tRNAs in their bacterial ancestors. This is one of the reasons why current tRNA gene predictor programs perform poorly identifying mitochondrial tRNA genes. As a consequence there is a need for a new program with the specific aim of predicting these tRNAs. In this study, we present the software ARWEN that identifies tRNA genes in metazoan mitochondrial nucleotide sequences. ARWEN detects close to 100% of previously annotated genes. An online version, software for download and test results are available at www.acgt.se/online.html
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                Author and article information

                Journal
                Journal ID (nlm-ta): Mitochondrial DNA B Resour
                Journal ID (iso-abbrev): Mitochondrial DNA B Resour
                Title: Mitochondrial DNA. Part B, Resources
                Publisher: Taylor & Francis
                ISSN (Electronic): 2380-2359
                Publication date (Electronic, pub): 29 October 2016
                Publication date (Electronic, collection): 2016
                Volume: 1
                Issue: 1
                Pages: 783-786
                Affiliations
                [a ]Division of Ecology and Evolution, ITZ, University of Veterinary Medicine Hannover , Hannover, Germany;
                [b ]EEB, Yale University , New Haven, CT, USA
                Author notes
                CONTACT Rebecca Herzog rebecca.herzog@ 123456ecolevol.de ITZ, Ecology and Evolution, University of Veterinary Medicine Hannover , Bünteweg 17d, Hannover, 30559, Germany
                Article
                Publisher ID: 1186523
                DOI: 10.1080/23802359.2016.1186523
                PMC ID: 7799497
                SO-VID: 0e18a93c-a905-427c-8412-c19d7d578c10
                Copyright © © 2016 The Author(s). Published by Informa UK Limited, trading as Taylor & Francis Group.
                License:

                This is an Open Access article distributed under the terms of the Creative Commons Attribution License ( http://creativecommons.org/Licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

                History
                Page count
                Figures: 1, Pages: 4
                Categories
                Subject: Research Article
                Subject: Mito Communication

                Keywords: mitochondrial genome,odonata,anax imperator,aeshnidae,anisoptera,s5 intergenic spacer
                Data availability:
                Keywords: mitochondrial genome, odonata, anax imperator, aeshnidae, anisoptera, s5 intergenic spacer

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